# MedCo Technical Documentation ## v1.0.0 - [Home](https://ldsec.gitbook.io/medco-documentation/v1.0.0/master.md) - [Releases](https://ldsec.gitbook.io/medco-documentation/v1.0.0/releases.md) - [Requirements](https://ldsec.gitbook.io/medco-documentation/v1.0.0/system-administrators/requirements.md) - [Deployment](https://ldsec.gitbook.io/medco-documentation/v1.0.0/system-administrators/deployment.md): These pages explain how to deploy MedCo in different scenarios. - [Local Test Deployment](https://ldsec.gitbook.io/medco-documentation/v1.0.0/system-administrators/deployment/local-test-deployment.md): Deployment of profile test-local-3nodes. - [Network Deployment](https://ldsec.gitbook.io/medco-documentation/v1.0.0/system-administrators/deployment/network-deployment.md): Deployment of profile test-network. - [Configuration](https://ldsec.gitbook.io/medco-documentation/v1.0.0/system-administrators/deployment/configuration.md) - [Passwords](https://ldsec.gitbook.io/medco-documentation/v1.0.0/system-administrators/deployment/configuration/passwords.md) - [Keycloak](https://ldsec.gitbook.io/medco-documentation/v1.0.0/system-administrators/deployment/configuration/keycloak.md) - [HTTPS Configuration](https://ldsec.gitbook.io/medco-documentation/v1.0.0/system-administrators/deployment/configuration/https-configuration.md) - [Configuring SwitchAAI Authentication](https://ldsec.gitbook.io/medco-documentation/v1.0.0/system-administrators/deployment/configuration/configuring-switchaai-authentication.md): This guide walks you through the process of configuring Keycloak as a Service Provider to one or more SwitchAAI identity provider(s), in order for MedCo to rely on SwitchAAI for user authentication. - [Data Loading](https://ldsec.gitbook.io/medco-documentation/v1.0.0/system-administrators/data-loading.md) - [v0 (Genomic Data)](https://ldsec.gitbook.io/medco-documentation/v1.0.0/system-administrators/data-loading/v0-genomic-data.md) - [v1 (I2B2 Demodata)](https://ldsec.gitbook.io/medco-documentation/v1.0.0/system-administrators/data-loading/v1-i2b2-demodata.md) - [Command-Line Interface (CLI)](https://ldsec.gitbook.io/medco-documentation/v1.0.0/system-administrators/cli.md) - [Network Architecture](https://ldsec.gitbook.io/medco-documentation/v1.0.0/system-administrators/network-architecture.md) - [Common Problems](https://ldsec.gitbook.io/medco-documentation/v1.0.0/system-administrators/common-problems.md) - [Local Development Deployment](https://ldsec.gitbook.io/medco-documentation/v1.0.0/developers/local-development-deployment.md): Deployment profile dev-local-3nodes. - [System Architecture](https://ldsec.gitbook.io/medco-documentation/v1.0.0/developers/system-architecture.md) - [Description of the default test data](https://ldsec.gitbook.io/medco-documentation/v1.0.0/developers/description-of-the-default-test-data.md) - [Database](https://ldsec.gitbook.io/medco-documentation/v1.0.0/developers/database.md) ## v2.0.1 - [Home](https://ldsec.gitbook.io/medco-documentation/v2.0.1/master.md) - [Releases](https://ldsec.gitbook.io/medco-documentation/v2.0.1/releases.md) - [Requirements](https://ldsec.gitbook.io/medco-documentation/v2.0.1/system-administrators/requirements.md) - [Deployment](https://ldsec.gitbook.io/medco-documentation/v2.0.1/system-administrators/deployment.md): These pages explain how to deploy MedCo in different scenarios. - [Local Test Deployment](https://ldsec.gitbook.io/medco-documentation/v2.0.1/system-administrators/deployment/local-test-deployment.md): Deployment of profile test-local-3nodes. - [Network Deployment](https://ldsec.gitbook.io/medco-documentation/v2.0.1/system-administrators/deployment/network-deployment.md): Deployment of profile test-network. - [Configuration](https://ldsec.gitbook.io/medco-documentation/v2.0.1/system-administrators/deployment/configuration.md) - [Passwords](https://ldsec.gitbook.io/medco-documentation/v2.0.1/system-administrators/deployment/configuration/passwords.md) - [Keycloak](https://ldsec.gitbook.io/medco-documentation/v2.0.1/system-administrators/deployment/configuration/keycloak.md) - [Setting Authorizations](https://ldsec.gitbook.io/medco-documentation/v2.0.1/system-administrators/deployment/configuration/setting-authorizations.md): This page guide you on how to set authorizations to users through Keycloak. - [HTTPS Configuration](https://ldsec.gitbook.io/medco-documentation/v2.0.1/system-administrators/deployment/configuration/https-configuration.md) - [Configuring SwitchAAI Authentication](https://ldsec.gitbook.io/medco-documentation/v2.0.1/system-administrators/deployment/configuration/configuring-switchaai-authentication.md): This guide walks you through the process of configuring Keycloak as a Service Provider to one or more SwitchAAI identity provider(s), in order for MedCo to rely on SwitchAAI for user authentication. - [Data Loading](https://ldsec.gitbook.io/medco-documentation/v2.0.1/system-administrators/data-loading.md) - [Synthetic SPO Data](https://ldsec.gitbook.io/medco-documentation/v2.0.1/system-administrators/data-loading/synthetic-spo-data.md): This page will guide you through loading example synthetic data that follows the SPO (Swiss Personalized Oncology) ontology. - [v0 (Genomic Data)](https://ldsec.gitbook.io/medco-documentation/v2.0.1/system-administrators/data-loading/v0-genomic-data.md) - [v1 (I2B2 Demodata)](https://ldsec.gitbook.io/medco-documentation/v2.0.1/system-administrators/data-loading/v1-i2b2-demodata.md) - [Command-Line Interface (CLI)](https://ldsec.gitbook.io/medco-documentation/v2.0.1/system-administrators/cli.md) - [Network Architecture](https://ldsec.gitbook.io/medco-documentation/v2.0.1/system-administrators/network-architecture.md) - [Common Problems](https://ldsec.gitbook.io/medco-documentation/v2.0.1/system-administrators/common-problems.md) - [Local Development Deployment](https://ldsec.gitbook.io/medco-documentation/v2.0.1/developers/local-development-deployment.md): Deployment profile dev-local-3nodes. - [System Architecture](https://ldsec.gitbook.io/medco-documentation/v2.0.1/developers/system-architecture.md) - [Description of the default test data](https://ldsec.gitbook.io/medco-documentation/v2.0.1/developers/description-of-the-default-test-data.md) - [Database](https://ldsec.gitbook.io/medco-documentation/v2.0.1/developers/database.md) - [Live Demo](https://ldsec.gitbook.io/medco-documentation/v2.0.1/developers/live-demo.md) - [Release a new version](https://ldsec.gitbook.io/medco-documentation/v2.0.1/developers/release-a-new-version.md): This is a small guide to make a new MedCo release. - [MedCo Live Demo Tutorial](https://ldsec.gitbook.io/medco-documentation/v2.0.1/for-users/live-demo-tutorial.md): July 2021 ## v0.3.0 - [Home](https://ldsec.gitbook.io/medco-documentation/v0.3.0/master.md) - [Releases](https://ldsec.gitbook.io/medco-documentation/v0.3.0/releases.md) - [Requirements](https://ldsec.gitbook.io/medco-documentation/v0.3.0/system-administrators/requirements.md) - [Deployment](https://ldsec.gitbook.io/medco-documentation/v0.3.0/system-administrators/deployment.md): These pages explain how to deploy MedCo in different scenarios. - [Local Test Deployment](https://ldsec.gitbook.io/medco-documentation/v0.3.0/system-administrators/deployment/local-test-deployment.md): Deployment of profile test-local-3nodes. - [Network Test Deployment](https://ldsec.gitbook.io/medco-documentation/v0.3.0/system-administrators/deployment/network-test-deployment.md): Deployment of profile test-network. - [Network Production Deployment](https://ldsec.gitbook.io/medco-documentation/v0.3.0/system-administrators/deployment/network-production-deployment.md): Deployment of profile prod-network. - [Configuration](https://ldsec.gitbook.io/medco-documentation/v0.3.0/system-administrators/deployment/configuration.md) - [Keycloak](https://ldsec.gitbook.io/medco-documentation/v0.3.0/system-administrators/deployment/configuration/keycloak.md) - [HTTPS Configuration](https://ldsec.gitbook.io/medco-documentation/v0.3.0/system-administrators/deployment/configuration/https-configuration.md) - [Configuring SwitchAAI Authentication](https://ldsec.gitbook.io/medco-documentation/v0.3.0/system-administrators/deployment/configuration/configuring-switchaai-authentication.md): This guide walks you through the process of configuring Keycloak as a Service Provider to one or more SwitchAAI identity provider(s), in order for MedCo to rely on SwitchAAI for user authentication. - [Data Loading](https://ldsec.gitbook.io/medco-documentation/v0.3.0/system-administrators/data-loading.md) - [v0 (Genomic Data)](https://ldsec.gitbook.io/medco-documentation/v0.3.0/system-administrators/data-loading/v0-genomic-data.md) - [v1 (I2B2 Demodata)](https://ldsec.gitbook.io/medco-documentation/v0.3.0/system-administrators/data-loading/v1-i2b2-demodata.md) - [Command-Line Interface (CLI)](https://ldsec.gitbook.io/medco-documentation/v0.3.0/system-administrators/cli.md) - [Network Architecture](https://ldsec.gitbook.io/medco-documentation/v0.3.0/system-administrators/network-architecture.md) - [Common Problems](https://ldsec.gitbook.io/medco-documentation/v0.3.0/system-administrators/common-problems.md) - [Local Development Deployment](https://ldsec.gitbook.io/medco-documentation/v0.3.0/developers/local-development-deployment.md): Deployment profile dev-local-3nodes. - [System Architecture](https://ldsec.gitbook.io/medco-documentation/v0.3.0/developers/system-architecture.md) - [Description of the default test data](https://ldsec.gitbook.io/medco-documentation/v0.3.0/developers/description-of-the-default-test-data.md) - [Database](https://ldsec.gitbook.io/medco-documentation/v0.3.0/developers/database.md) ## v0.2.1 - [Home](https://ldsec.gitbook.io/medco-documentation/v0.2.1/master.md) - [Releases](https://ldsec.gitbook.io/medco-documentation/v0.2.1/releases.md) - [System Administrator Guide](https://ldsec.gitbook.io/medco-documentation/v0.2.1/system-administrator-guide.md) - [Specifications](https://ldsec.gitbook.io/medco-documentation/v0.2.1/system-administrator-guide/specifications.md) - [Deployment](https://ldsec.gitbook.io/medco-documentation/v0.2.1/system-administrator-guide/deployment.md) - [Local Test Deployment](https://ldsec.gitbook.io/medco-documentation/v0.2.1/system-administrator-guide/deployment/local-test-deployment.md) - [Network Test Deployment](https://ldsec.gitbook.io/medco-documentation/v0.2.1/system-administrator-guide/deployment/network-test-deployment.md) - [Local Development Deployment](https://ldsec.gitbook.io/medco-documentation/v0.2.1/system-administrator-guide/deployment/local-development-deployment.md) - [Configuration](https://ldsec.gitbook.io/medco-documentation/v0.2.1/system-administrator-guide/configuration.md) - [Keycloak Configuration](https://ldsec.gitbook.io/medco-documentation/v0.2.1/system-administrator-guide/configuration/keycloak-configuration.md) - [HTTPS Configuration](https://ldsec.gitbook.io/medco-documentation/v0.2.1/system-administrator-guide/configuration/https-configuration.md) - [The PostgreSQL database](https://ldsec.gitbook.io/medco-documentation/v0.2.1/system-administrator-guide/configuration/the-postgresql-database.md) - [Configuring SwitchAAI Authentication](https://ldsec.gitbook.io/medco-documentation/v0.2.1/system-administrator-guide/configuration/configuring-switchaai-authentication.md): This guide walks you through the process of configuring Keycloak as a Service Provider to one or more SwitchAAI identity provider(s), in order for MedCo to rely on SwitchAAI for user authentication. - [Loading Data](https://ldsec.gitbook.io/medco-documentation/v0.2.1/system-administrator-guide/loading-data.md) - [v0 (Genomic Data)](https://ldsec.gitbook.io/medco-documentation/v0.2.1/system-administrator-guide/loading-data/v0-genomic-data.md) - [v1 (I2B2 Demodata)](https://ldsec.gitbook.io/medco-documentation/v0.2.1/system-administrator-guide/loading-data/v1-i2b2-demodata.md) - [Command-Line Interface (CLI)](https://ldsec.gitbook.io/medco-documentation/v0.2.1/system-administrator-guide/command-line-interface-cli.md) - [Network Architecture](https://ldsec.gitbook.io/medco-documentation/v0.2.1/system-administrator-guide/network-architecture.md) - [Developer Guide](https://ldsec.gitbook.io/medco-documentation/v0.2.1/developer-guide.md) - [System Architecture](https://ldsec.gitbook.io/medco-documentation/v0.2.1/developer-guide/system-architecture.md) - [Description of the default test data](https://ldsec.gitbook.io/medco-documentation/v0.2.1/developer-guide/description-of-the-default-test-data.md) ## v2.0.0 - [Home](https://ldsec.gitbook.io/medco-documentation/v2.0.0/master.md) - [Releases](https://ldsec.gitbook.io/medco-documentation/v2.0.0/releases.md) - [Requirements](https://ldsec.gitbook.io/medco-documentation/v2.0.0/system-administrators/requirements.md) - [Deployment](https://ldsec.gitbook.io/medco-documentation/v2.0.0/system-administrators/deployment.md): These pages explain how to deploy MedCo in different scenarios. - [Local Test Deployment](https://ldsec.gitbook.io/medco-documentation/v2.0.0/system-administrators/deployment/local-test-deployment.md): Deployment of profile test-local-3nodes. - [Network Deployment](https://ldsec.gitbook.io/medco-documentation/v2.0.0/system-administrators/deployment/network-deployment.md): Deployment of profile test-network. - [Configuration](https://ldsec.gitbook.io/medco-documentation/v2.0.0/system-administrators/deployment/configuration.md) - [Passwords](https://ldsec.gitbook.io/medco-documentation/v2.0.0/system-administrators/deployment/configuration/passwords.md) - [Keycloak](https://ldsec.gitbook.io/medco-documentation/v2.0.0/system-administrators/deployment/configuration/keycloak.md) - [Setting Authorizations](https://ldsec.gitbook.io/medco-documentation/v2.0.0/system-administrators/deployment/configuration/setting-authorizations.md): This page guide you on how to set authorizations to users through Keycloak. - [HTTPS Configuration](https://ldsec.gitbook.io/medco-documentation/v2.0.0/system-administrators/deployment/configuration/https-configuration.md) - [Configuring SwitchAAI Authentication](https://ldsec.gitbook.io/medco-documentation/v2.0.0/system-administrators/deployment/configuration/configuring-switchaai-authentication.md): This guide walks you through the process of configuring Keycloak as a Service Provider to one or more SwitchAAI identity provider(s), in order for MedCo to rely on SwitchAAI for user authentication. - [Data Loading](https://ldsec.gitbook.io/medco-documentation/v2.0.0/system-administrators/data-loading.md) - [Synthetic SPO Data](https://ldsec.gitbook.io/medco-documentation/v2.0.0/system-administrators/data-loading/synthetic-spo-data.md): This page will guide you through loading example synthetic data that follows the SPO (Swiss Personalized Oncology) ontology. - [v0 (Genomic Data)](https://ldsec.gitbook.io/medco-documentation/v2.0.0/system-administrators/data-loading/v0-genomic-data.md) - [v1 (I2B2 Demodata)](https://ldsec.gitbook.io/medco-documentation/v2.0.0/system-administrators/data-loading/v1-i2b2-demodata.md) - [Command-Line Interface (CLI)](https://ldsec.gitbook.io/medco-documentation/v2.0.0/system-administrators/cli.md) - [Network Architecture](https://ldsec.gitbook.io/medco-documentation/v2.0.0/system-administrators/network-architecture.md) - [Common Problems](https://ldsec.gitbook.io/medco-documentation/v2.0.0/system-administrators/common-problems.md) - [Local Development Deployment](https://ldsec.gitbook.io/medco-documentation/v2.0.0/developers/local-development-deployment.md): Deployment profile dev-local-3nodes. - [System Architecture](https://ldsec.gitbook.io/medco-documentation/v2.0.0/developers/system-architecture.md) - [Description of the default test data](https://ldsec.gitbook.io/medco-documentation/v2.0.0/developers/description-of-the-default-test-data.md) - [Database](https://ldsec.gitbook.io/medco-documentation/v2.0.0/developers/database.md) - [Live Demo](https://ldsec.gitbook.io/medco-documentation/v2.0.0/developers/live-demo.md) - [Release a new version](https://ldsec.gitbook.io/medco-documentation/v2.0.0/developers/release-a-new-version.md): This is a small guide to make a new MedCo release. ## v0.3.1 - [Home](https://ldsec.gitbook.io/medco-documentation/v0.3.1/master.md) - [Releases](https://ldsec.gitbook.io/medco-documentation/v0.3.1/releases.md) - [Requirements](https://ldsec.gitbook.io/medco-documentation/v0.3.1/system-administrators/requirements.md) - [Deployment](https://ldsec.gitbook.io/medco-documentation/v0.3.1/system-administrators/deployment.md): These pages explain how to deploy MedCo in different scenarios. - [Local Test Deployment](https://ldsec.gitbook.io/medco-documentation/v0.3.1/system-administrators/deployment/local-test-deployment.md): Deployment of profile test-local-3nodes. - [Network Test Deployment](https://ldsec.gitbook.io/medco-documentation/v0.3.1/system-administrators/deployment/network-test-deployment.md): Deployment of profile test-network. - [Network Production Deployment](https://ldsec.gitbook.io/medco-documentation/v0.3.1/system-administrators/deployment/network-production-deployment.md): Deployment of profile prod-network. - [Configuration](https://ldsec.gitbook.io/medco-documentation/v0.3.1/system-administrators/deployment/configuration.md) - [Keycloak](https://ldsec.gitbook.io/medco-documentation/v0.3.1/system-administrators/deployment/configuration/keycloak.md) - [HTTPS Configuration](https://ldsec.gitbook.io/medco-documentation/v0.3.1/system-administrators/deployment/configuration/https-configuration.md) - [Configuring SwitchAAI Authentication](https://ldsec.gitbook.io/medco-documentation/v0.3.1/system-administrators/deployment/configuration/configuring-switchaai-authentication.md): This guide walks you through the process of configuring Keycloak as a Service Provider to one or more SwitchAAI identity provider(s), in order for MedCo to rely on SwitchAAI for user authentication. - [Data Loading](https://ldsec.gitbook.io/medco-documentation/v0.3.1/system-administrators/data-loading.md) - [v0 (Genomic Data)](https://ldsec.gitbook.io/medco-documentation/v0.3.1/system-administrators/data-loading/v0-genomic-data.md) - [v1 (I2B2 Demodata)](https://ldsec.gitbook.io/medco-documentation/v0.3.1/system-administrators/data-loading/v1-i2b2-demodata.md) - [Command-Line Interface (CLI)](https://ldsec.gitbook.io/medco-documentation/v0.3.1/system-administrators/cli.md) - [Network Architecture](https://ldsec.gitbook.io/medco-documentation/v0.3.1/system-administrators/network-architecture.md) - [Common Problems](https://ldsec.gitbook.io/medco-documentation/v0.3.1/system-administrators/common-problems.md) - [Local Development Deployment](https://ldsec.gitbook.io/medco-documentation/v0.3.1/developers/local-development-deployment.md): Deployment profile dev-local-3nodes. - [System Architecture](https://ldsec.gitbook.io/medco-documentation/v0.3.1/developers/system-architecture.md) - [Description of the default test data](https://ldsec.gitbook.io/medco-documentation/v0.3.1/developers/description-of-the-default-test-data.md) - [Database](https://ldsec.gitbook.io/medco-documentation/v0.3.1/developers/database.md) ## v3.0.0 - [Home](https://ldsec.gitbook.io/medco-documentation/master.md) - [Releases](https://ldsec.gitbook.io/medco-documentation/releases.md) - [Requirements](https://ldsec.gitbook.io/medco-documentation/system-administrators/requirements.md) - [Deployment](https://ldsec.gitbook.io/medco-documentation/system-administrators/deployment.md): These pages explain how to deploy MedCo in different scenarios. - [Local Test Deployment](https://ldsec.gitbook.io/medco-documentation/system-administrators/deployment/local-test-deployment.md): Deployment of profile test-local-3nodes. - [Network Deployment](https://ldsec.gitbook.io/medco-documentation/system-administrators/deployment/network-deployment.md): Deployment of profile test-network. - [Configuration](https://ldsec.gitbook.io/medco-documentation/system-administrators/deployment/configuration.md) - [Passwords](https://ldsec.gitbook.io/medco-documentation/system-administrators/deployment/configuration/passwords.md) - [Keycloak](https://ldsec.gitbook.io/medco-documentation/system-administrators/deployment/configuration/keycloak.md) - [Setting Authorizations](https://ldsec.gitbook.io/medco-documentation/system-administrators/deployment/configuration/setting-authorizations.md): This page guide you on how to set authorizations to users through Keycloak. - [HTTPS Configuration](https://ldsec.gitbook.io/medco-documentation/system-administrators/deployment/configuration/https-configuration.md) - [Configuring SwitchAAI Authentication](https://ldsec.gitbook.io/medco-documentation/system-administrators/deployment/configuration/configuring-switchaai-authentication.md): This guide walks you through the process of configuring Keycloak as a Service Provider to one or more SwitchAAI identity provider(s), in order for MedCo to rely on SwitchAAI for user authentication. - [Data Loading](https://ldsec.gitbook.io/medco-documentation/system-administrators/data-loading.md) - [Synthetic SPO Data](https://ldsec.gitbook.io/medco-documentation/system-administrators/data-loading/synthetic-spo-data.md): This page will guide you through loading example synthetic data that follows the SPO (Swiss Personalized Oncology) ontology. - [v0 (Genomic Data)](https://ldsec.gitbook.io/medco-documentation/system-administrators/data-loading/v0-genomic-data.md) - [v1 (I2B2 Demodata)](https://ldsec.gitbook.io/medco-documentation/system-administrators/data-loading/v1-i2b2-demodata.md) - [Command-Line Interface (CLI)](https://ldsec.gitbook.io/medco-documentation/system-administrators/cli.md) - [Network Architecture](https://ldsec.gitbook.io/medco-documentation/system-administrators/network-architecture.md) - [Common Problems](https://ldsec.gitbook.io/medco-documentation/system-administrators/common-problems.md) - [Local Development Deployment](https://ldsec.gitbook.io/medco-documentation/developers/local-development-deployment.md): Deployment profile dev-local-3nodes. - [System Architecture](https://ldsec.gitbook.io/medco-documentation/developers/system-architecture.md) - [Description of the default test data](https://ldsec.gitbook.io/medco-documentation/developers/description-of-the-default-test-data.md) - [Database](https://ldsec.gitbook.io/medco-documentation/developers/database.md) - [Live Demo](https://ldsec.gitbook.io/medco-documentation/developers/live-demo.md) - [Release a new version](https://ldsec.gitbook.io/medco-documentation/developers/release-a-new-version.md): This is a small guide to make a new MedCo release. - [MedCo Live Demo Tutorial](https://ldsec.gitbook.io/medco-documentation/for-users/live-demo-tutorial.md): July 2021